* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’ * installing *source* package ‘rxode2’ ... ** package ‘rxode2’ successfully unpacked and MD5 sums checked ** using staged installation R Under development (unstable) (2024-04-29 r86495) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > ## This is only for rxode2 > for (f in c("inst/include/rxode2_RcppExports.h", "src/RcppExports.cpp")) { + l <- readLines(f) + w <- which(regexpr("^[#]include ", l) != -1) + if (length(w) > 0) { + l <- l[-w] + } + w <- which(regexpr("^[#]define R_STRICT_HEADERS", l) != -1) + if (length(w) > 0) { + l <- l[-w] + } + l <- c("#define R_STRICT_HEADERS", + "#include ", + l) + file.out <- file(f, "wb") + writeLines(l, file.out) + close(file.out) + } > > l <- readLines("R/RcppExports.R") > w <- which(regexpr("# Register entry points", l, fixed=TRUE) != -1) > if (length(w) >= 1) { + w <- w[1] + l <- l[seq(1, w-1)] + RcppExports.R <- file("R/RcppExports.R", "wb") + writeLines(l, RcppExports.R) + close(RcppExports.R) + } > > .in <- suppressWarnings(readLines("src/Makevars.in")) > .in <- gsub("@ARMA@", file.path(find.package("RcppArmadillo"),"include"), .in) > .in <- gsub("@BH@", file.path(find.package("BH"),"include"), .in) > .in <- gsub("@RCPP@", file.path(find.package("Rcpp"),"include"), .in) > > > > if (.Platform$OS.type == "windows" && !file.exists("src/Makevars.win")) { + .in <- gsub("@CXX14STD@", "-std=c++1y", .in) + file.out <- file("src/Makevars.win", "wb") + writeLines(gsub("@ISYSTEM@", "I", .in), + file.out) + close(file.out) + } else { + .in <- gsub("@CXX14STD@", "-std=gnu++14", .in) + file.out <- file("src/Makevars", "wb") + writeLines(gsub("@ISYSTEM@", "isystem", .in), + file.out) + close(file.out) + } > > if (file.exists("man/reexports.Rd")) { + l <- readLines("man/reexports.Rd") + if (!any(regexpr("[\\]value", l) != -1)) { + l <- c(l, "\\value{ Inherited from parent routine }") + file.out <- file("man/reexports.Rd", "wb") + writeLines(l, file.out) + close(file.out) + } + } > > > unlink("R/rxode2_md5.R") > > cpp <- list.files("src", pattern = ".(c|h|cpp|f)$") > include <- list.files("inst/include") > #Rfiles <- list.files("R/", pattern = ".R") > > cmd <- file.path(R.home("bin"), "R") > args <- c("CMD", "config") > > md5 <- digest::digest(c(lapply(c(paste0("src/", cpp), + paste0("inst/include/", include)#, + #paste0("R/", Rfiles) + ), digest::digest, file = TRUE), + rxode2parse::rxode2parseMd5(), + rxode2random::rxode2randomMd5(), + ## vapply(c("BLAS_LIBS", "CC", "CFLAGS", "CPICFLAGS", + ## "CXX", "CXXFLAGS", "CXXPICFLAGS", + ## "CXX11", "CXX11STD", "CXX11FLAGS", "CXX11PICFLAGS", + ## "CXX14", "CXX14STD", "CXX14FLAGS", "CXX14PICFLAGS", + ## "CXX17", "CXX17STD", "CXX17FLAGS", "CXX17PICFLAGS", + ## "CXX20", "CXX20STD", "CXX20FLAGS", "CXX20PICFLAGS", + ## "FC", "FFLAGS", "FCFLAGS", "FPICFLAGS"), + ## function(cfg) { + ## rawToChar(sys::exec_internal(cmd, c(args, cfg))$stdout) + ## }, character(1) + ## ), + "" + )) > unlink("R/rxode2_md5.R") > md5file <- file("R/rxode2_md5.R", "wb") > writeLines(sprintf("rxode2.md5 <- \"%s\"\n", md5), md5file) > close(md5file) > > l <- readLines(file.path(system.file(package="rxode2parse"), "include", "sbuf.c")) > > sbuf.c <- file("src/sbuf.c", "wb") > .w <- which(regexpr(" *extern +SEXP +_goodFuns; *", l) != -1) > l <- l[-seq(.w, length(l))] > writeLines(l, sbuf.c) > close(sbuf.c) > > proc.time() user system elapsed 0.477 0.054 0.552 --------[begin src/Makevars]-------- # -*- mode: makefile-gmake -*- BH=/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include ################################################################################ ## Package library flags. PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS) # Release options PKG_CFLAGS = -D_isrxode2_ PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"$(BH)" --------[end src/Makevars]-------- --------[begin R/RxODE_md5.R]-------- rxode2.md5 <- "e494a54d1c17136ec72b60d73c1bfb6f" --------[end R/RxODE_md5.R]-------- ** libs using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 13.2.0-23) 13.2.0’ using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp84uANG/R.INSTALL1edaab38f1cc24/rxode2/src' g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c approx.c -o approx.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c boost.cpp -o boost.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c box.c -o box.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c call_dvode.c -o call_dvode.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cfode.c -o cfode.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cfode_static.c -o cfode_static.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c common.c -o common.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c corfailure.c -o corfailure.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c correction.c -o correction.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c daxpy.c -o daxpy.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ddot.c -o ddot.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dgefa.c -o dgefa.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dgesl.c -o dgesl.o gfortran-13 -fpic -g -O2 -Wall -mtune=native -c dgpadm.f -o dgpadm.o gfortran-13 -fpic -g -O2 -Wall -mtune=native -c dlsoda.f -o dlsoda.o dlsoda.f:2536:72: 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 | ^ Warning: ‘ml’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2407:32: 2407 | 1 LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0 | ^ note: ‘ml’ was declared here dlsoda.f:2536:72: 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 | ^ Warning: ‘mu’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2407:42: 2407 | 1 LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0 | ^ note: ‘mu’ was declared here dlsoda.f:2615:29: 2615 | IF (H0 .NE. 0.0D0 .AND. (T + H0 - TCRIT)*H0 .GT. 0.0D0) | ^ Warning: ‘h0’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2412:48: 2412 | DOUBLE PRECISION ATOLI, AYI, BIG, EWTI, H0, HMAX, HMX, RH, RTOLI, | ^ note: ‘h0’ was declared here dlsoda.f:2851:72: 2851 | IHIT = ABS(TN - TCRIT) .LE. 100.0D0*UROUND*HMX | ^ Warning: ‘tcrit’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2413:14: 2413 | 1 TCRIT, TDIST, TNEXT, TOL, TOLSF, TP, SIZE, SUM, W0 | ^ note: ‘tcrit’ was declared here dlsoda.f:2874:10: 2874 | IF (IHIT) T = TCRIT | ^ Warning: ‘ihit’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2415:18: 2415 | LOGICAL IHIT | ^ note: ‘ihit’ was declared here gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dop853.c -o dop853.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dscal.c -o dscal.o gfortran-13 -fpic -g -O2 -Wall -mtune=native -c dsphiv.f -o dsphiv.o dsphiv.f:270:72: 270 | wsp(iphih+mbrkdwn+1) = hj1j*wsp(iphih+2*mx+mbrkdwn-1) | ^ Warning: ‘hj1j’ may be used uninitialized [-Wmaybe-uninitialized] dsphiv.f:125:35: 125 | . avnorm, hj1j, hjj, SQR1 | ^ note: ‘hj1j’ was declared here g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c etTran.cpp -o etTran.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c expandGrid.cpp -o expandGrid.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c expm.cpp -o expm.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fnorm.c -o fnorm.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c forder.cpp -o forder.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c handle_evid.c -o handle_evid.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c idamax.c -o idamax.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c intdy.c -o intdy.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lsoda.c -o lsoda.o gfortran-13 -fpic -g -O2 -Wall -mtune=native -c matexp.f -o matexp.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c matexp_HM98.c -o matexp_HM98.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c methodswitch.c -o methodswitch.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c nearPD.cpp -o nearPD.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c omegaChol.c -o omegaChol.o gfortran-13 -fpic -g -O2 -Wall -mtune=native -c opkda2.f -o opkda2.o opkda2.f:650:28: 650 | INTEGER FUNCTION IXSAV (IPAR, IVALUE, ISET) | ^ Warning: ‘__result_ixsav’ may be used uninitialized [-Wmaybe-uninitialized] gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c orderswitch.c -o orderswitch.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c par_solve.cpp -o par_solve.o In file included from par_solve.cpp:13: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h:223:9: warning: unused variable ‘curEvid’ [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ par_solve.cpp: In function ‘void handleSS(int*, int*, double*, double*, double*, double, double, int, int*, int, int*, rx_solving_options*, rx_solving_options_ind*, t_update_inis, void*)’: par_solve.cpp:1362:39: warning: variable ‘oldI’ set but not used [-Wunused-but-set-variable] 1362 | ei=0, wh, cmt, wh100, whI, wh0, oldI, | ^~~~ /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h: In function ‘double handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h:314:5: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized] 314 | if (infBidx == -1) return 0.0; | ^~ /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h:312:9: note: ‘infBidx’ was declared here 312 | int infBidx; | ^~~~~~~ par_solve.cpp: In function ‘void solveWith1Pt(int*, int*, double*, double*, double*, double, double, int, int*, int, int*, rx_solving_options*, rx_solving_options_ind*, t_update_inis, void*)’: par_solve.cpp:753:5: warning: ‘idid’ may be used uninitialized [-Wmaybe-uninitialized] 753 | if (idid <= 0) { | ^~ par_solve.cpp:746:7: note: ‘idid’ was declared here 746 | int idid, itol=0; | ^~~~ gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c prja.c -o prja.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rprintf.c -o rprintf.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxData.cpp -o rxData.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxInv.cpp -o rxInv.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxOptRep.cpp -o rxOptRep.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxode2_df.cpp -o rxode2_df.o In file included from rxode2_df.cpp:33: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h:223:9: warning: unused variable ‘curEvid’ [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ In function ‘double handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’, inlined from ‘double getTime__(int, rx_solving_options_ind*, int)’ at /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h:381:34: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h:314:5: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized] 314 | if (infBidx == -1) return 0.0; | ^~ /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h: In function ‘double getTime__(int, rx_solving_options_ind*, int)’: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include/rxode2parseGetTime.h:312:9: note: ‘infBidx’ was declared here 312 | int infBidx; | ^~~~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxode2parse.cpp -o rxode2parse.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxode2random.cpp -o rxode2random.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sbuf.c -o sbuf.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c scaleh.c -o scaleh.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c solsy.c -o solsy.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c stoda.c -o stoda.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strdup_printf.c -o strdup_printf.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strncmp.c -o strncmp.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utilc.c -o utilc.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -DBOOST_NO_AUTO_PTR -D_REENTRANT -isystem"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c utilcpp.cpp -o utilcpp.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2parse/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rxode2random/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/PreciseSums/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vmnorm.c -o vmnorm.o g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o rxode2.so RcppExports.o approx.o boost.o box.o call_dvode.o cfode.o cfode_static.o common.o corfailure.o correction.o daxpy.o ddot.o dgefa.o dgesl.o dgpadm.o dlsoda.o dop853.o dscal.o dsphiv.o etTran.o expandGrid.o expm.o fnorm.o forder.o handle_evid.o idamax.o init.o intdy.o lsoda.o matexp.o matexp_HM98.o methodswitch.o nearPD.o omegaChol.o opkda2.o orderswitch.o par_solve.o prja.o rprintf.o rxData.o rxInv.o rxOptRep.o rxode2_df.o rxode2parse.o rxode2random.o sbuf.o scaleh.o solsy.o stoda.o strdup_printf.o strncmp.o utilc.o utilcpp.o vmnorm.o -llapack -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp84uANG/R.INSTALL1edaab38f1cc24/rxode2/src' make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp84uANG/R.INSTALL1edaab38f1cc24/rxode2/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp84uANG/R.INSTALL1edaab38f1cc24/rxode2/src' installing via 'install.libs.R' to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-rxode2/00new/rxode2 ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * creating tarball packaged installation of ‘rxode2’ as ‘rxode2_2.1.2_R_x86_64-pc-linux-gnu.tar.gz’ * DONE (rxode2)